Genome -based technologies are being instigated to manipulate the structure and function of the genome and to identify the genes of interest for genetic modification of economically important species. Genome editing technologies have also been designed for genetic manipulation of aquaculture species to increase production and quality with minimum investment costs. DNA marker technologies are the most widely used genome technologies. DNA fingerprints are used to construct physical maps while genetic maps are based upon meiotic recombination. BAC fingerprinting is the commonly used method for physical mapping. Next- generation sequencers revolutionized science and allowed the de-novo whole genome sequencing. QTL mapping has made it possible to identify the genes responsible for a particular trait. Government involvement and better training of aqualturists are direly needed to reinforce the practical implications of genome- based technologies.